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Congenital Interstitial Lung Disease with Nephrotic Syndrome and Epidermolysis Bullosa (ILNEB) via the ITGA3 Gene

Summary and Pricing

Test Method

Exome Sequencing with CNV Detection
Test Code Test Copy GenesTest CPT Code Gene CPT Codes Copy CPT Codes Base Price
ITGA3 81479 81479,81479 $990
Test Code Test Copy Genes Test CPT Code Gene CPT Codes Copy CPT Code Base Price
11399ITGA381479 81479,81479 $990 Order Options and Pricing

Pricing Comments

Our favored testing approach is exome based NextGen sequencing with CNV analysis. This will allow cost effective reflexing to PGxome or other exome based tests. However, if full gene Sanger sequencing is desired for STAT turnaround time, insurance, or other reasons, please see link below for Test Code, pricing, and turnaround time information. If the Sanger option is selected, CNV detection may be ordered through Test #600.

An additional 25% charge will be applied to STAT orders. STAT orders are prioritized throughout the testing process.

Click here for costs to reflex to whole PGxome (if original test is on PGxome Sequencing platform).

Click here for costs to reflex to whole PGnome (if original test is on PGnome Sequencing platform).

The Sanger Sequencing method for this test is NY State approved.

For Sanger Sequencing click here.

Turnaround Time

3 weeks on average for standard orders or 2 weeks on average for STAT orders.

Please note: Once the testing process begins, an Estimated Report Date (ERD) range will be displayed in the portal. This is the most accurate prediction of when your report will be complete and may differ from the average TAT published on our website. About 85% of our tests will be reported within or before the ERD range. We will notify you of significant delays or holds which will impact the ERD. Learn more about turnaround times here.

Targeted Testing

For ordering sequencing of targeted known variants, go to our Targeted Variants page.


Genetic Counselors


  • Angela Gruber, PhD

Clinical Features and Genetics

Clinical Features

Congenital interstitial lung disease with nephrotic syndrome and epidermolysis bullosa (ILNEB) is a multiorgan disorder characterized by congenital nephrotic syndrome, interstitial lung disease, and epidermolysis bullosa (Has et al. 2012; Nicolaou et al. 2012). Affected infants have disrupted basement-membrane structures and compromised barrier functions in the kidneys, lungs, and skin. The respiratory and renal features predominate, and lung involvement leads to the lethal course of the disease. Skin fragility is mild.


Congenital interstitial lung disease with nephrotic syndrome and epidermolysis bullosa is an autosomal recessive disorder caused by defects in the ITGA3 gene (Has et al. 2012; Nicolaou et al. 2012). This gene encodes integrin α3, which is a transmembrane integrin receptor subunit that mediates signals between the cells and their microenvironment. So far, genetic defects of ITGA3 found in this disease include missense, splicing mutations and small deletion/insertions (Human Gene Mutation Database). Exon-level large deletions involving ITGA3 have not been reported.

Clinical Sensitivity - Sequencing with CNV PGxome

Detection rate of pathogenic variants in the ITGA3 gene in a large cohort of patients with congenital interstitial lung disease with nephrotic syndrome and epidermolysis bullosa (ILNEB) is unknown in the literature because documented ITGA3 pathogenic variants have been reported only in limited cases. Analytical sensitivity should be high as the reported mutations are detectable by sequencing.

Testing Strategy

This test provides full coverage of all coding exons of the ITGA3 gene plus 10 bases of flanking noncoding DNA in all available transcripts along with other non-coding regions in which pathogenic variants have been identified at PreventionGenetics or reported elsewhere. We define full coverage as >20X NGS reads or Sanger sequencing. PGnome panels typically provide slightly increased coverage over the PGxome equivalent. PGnome sequencing panels have the added benefit of additional analysis and reporting of deep intronic regions (where applicable).

Dependent on the sequencing backbone selected for this testing, discounted reflex testing to any other similar backbone-based test is available (i.e., PGxome panel to whole PGxome; PGnome panel to whole PGnome).

Indications for Test

Candidates for this test are patients with congenital interstitial lung disease with nephrotic syndrome and epidermolysis bullosa (ILNEB). Testing is also indicated for family members of patients who have known mutations in the ITGA3 gene. This test may also be considered for the reproductive partners of individuals who carry pathogenic variants in ITGA3.


Official Gene Symbol OMIM ID
ITGA3 605025
Inheritance Abbreviation
Autosomal Dominant AD
Autosomal Recessive AR
X-Linked XL
Mitochondrial MT


  • Has C, Spartà G, Kiritsi D, Weibel L, Moeller A, Vega-Warner V, Waters A, He Y, Anikster Y, Esser P, Straub BK, Hausser I, et al. 2012. Integrin ?3 mutations with kidney, lung, and skin disease. N. Engl. J. Med. 366: 1508–1514. PubMed ID: 22512483
  • Human Gene Mutation Database (Bio-base).
  • Nicolaou N, Margadant C, Kevelam SH, Lilien MR, Oosterveld MJS, Kreft M, Eerde AM van, Pfundt R, Terhal PA, Zwaag B van der, Nikkels PGJ, Sachs N, et al. 2012. Gain of glycosylation in integrin ?3 causes lung disease and nephrotic syndrome. J. Clin. Invest. 122: 4375–4387. PubMed ID: 23114595


Ordering Options

We offer several options when ordering sequencing tests. For more information on these options, see our Ordering Instructions page. To view available options, click on the Order Options button within the test description.

myPrevent - Online Ordering

  • The test can be added to your online orders in the Summary and Pricing section.
  • Once the test has been added log in to myPrevent to fill out an online requisition form.
  • PGnome sequencing panels can be ordered via the myPrevent portal only at this time.

Requisition Form

  • A completed requisition form must accompany all specimens.
  • Billing information along with specimen and shipping instructions are within the requisition form.
  • All testing must be ordered by a qualified healthcare provider.

For Requisition Forms, visit our Forms page

If ordering a Duo or Trio test, the proband and all comparator samples are required to initiate testing. If we do not receive all required samples for the test ordered within 21 days, we will convert the order to the most effective testing strategy with the samples available. Prior authorization and/or billing in place may be impacted by a change in test code.

Specimen Types

Specimen Requirements and Shipping Details

PGxome (Exome) Sequencing Panel

PGnome (Genome) Sequencing Panel

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View Ordering Instructions

1) Select Test Method (Platform)

1) Select Test Type

2) Select Additional Test Options

No Additional Test Options are available for this test.

Note: acceptable specimen types are whole blood and DNA from whole blood only.
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